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mmu_circBub1b_275
Basic information of circular RNA
PanCircBase ID:
mmu_circBub1b_275
mm39_Chr. Position ID:
chr2|118461425|118462380|+
Gene name:
Bub1b
Transcript:
ENSMUST00000038341.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
16,17
Exon/intron offsets:
0,814
Genomic length:
955
Exon/intron sizes in nt:
1,34,141
Flanking exon/introns:
chr2:118460646-118461425|chr2:118462380-118462891
Splice length:
275
Other database IDs:
circBase: mmu_circ_0009211, CIRCpedia: MMU_CIRCpedia_4564, circAtlas: mmu-Bub1b_0001
circAtlas: hsa-BUB1B_0065
Human Ortholog IDs:
Mature spliced Sequence:
CCCAATTATTGAAGAGAGCCGTGAGGCCACCCACTCATCTGGCTTCTCCAGGTCTTCTTCCTCAGCTCCCAGTACATCCTCCATCAAAGGCTTTCAGCTTCTGGAAAAGCTGGAGCTGACTAATGACGGGGCAGAAGATGCTATTCAGTCACCCTGGTGTTCACAGTATCGCCTACAACTGTTAAAATCCCTACTAGAATTAAGTGCTTTTGCGGAGTTTTCTGTGGAAGACCGACCGATGCCTGTGCTGGAAATAGGGAAGGAGATTGAGTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTCTGTGGAAGACCGACCG
59.97
TGGAGGATGTACTGGGAGCT
59.66
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTCTGTGGAAGACCGACCG
59.97
ATGGAGGATGTACTGGGAGCT
60.06
141
PCR template sequence:
CAACTGTTAAAATCCCTACTAGAATTAAGTGCTTTTGCGGAGTTTTCTGTGGAAGACCGACCGATGCCTGTGCTGGAAATAGGGAAGGAGATTGAGTTAGCCCAATTATTGAAGAGAGCCGTGAGGCCACCCACTCATCTGGCTTCTCCAGGTCTTCTTCCTCAGCTCCCAGTACATCCTCCATCAAAGGCTTTCAGCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGATTGAGTTAGCCCAATTATTGAA
siRNA sets
TCAATAATTGGGCTAACTC, TTCAATAATTGGGCTAACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBUB1B_275_ORF_1
0.7832
-0.05987522
0.051243326
156
ORF sequence:
ATGCCTGTGCTGGAAATAGGGAAGGAGATTGAGTTAGCCCAATTATTGAAGAGAGCCGTGAGGCCACCCACTCATCTGGCTTCTCCAGGTCTTCTTCCTCAGCTCCCAGTACATCCTCCATCAAAGGCTTTCAGCTTCTGGAAAAGCTGGAGCTGA
Peptide sequence:
MPVLEIGKEIELAQLLKRAVRPPTHLASPGLLPQLPVHPPSKAFSFWKSWS
IRESfinder result
IRESfinder score
0.561014205
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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